› 4d4z

X-ray diffraction
1.7Å resolution

STRUCTURE OF HUMAN DEOXYHYPUSINE HYDROXYLASE in complex with glycerol

Released:
DOI: 10.2210/pdb4d4z/pdb
PDB entry 4d4z coloured by chain, front view.
PDB entry 4d4z coloured by chain, side view.
PDB entry 4d4z coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal Structure of the Peroxo-diiron(III) Intermediate of Deoxyhypusine Hydroxylase, an Oxygenase Involved in Hypusination.
Han Z, Sakai N, Böttger LH, Klinke S, Hauber J, Trautwein AX, Hilgenfeld R
Structure 23 882-892 (2015)
PMID: 25865244

Function and Biology Details

Reaction catalysed: 
[eIF5A]-deoxyhypusine + AH(2) + O(2) = [eIF5A]-hypusine + A + H(2)O
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-573516 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Deoxyhypusine hydroxylase Chains: A, B
Molecule details ›
Chains: A, B
Length: 294 amino acids
Theoretical weight: 31.99 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9BU89 (Residues: 1-289; Coverage: 96%)
Gene names: DOHH, HLRC1
Sequence domains: HEAT repeats

Ligands and Environments

4 bound ligands:
Ligand FE 4 x FE
Ligand OH 2 x OH
Ligand GOL 2 x GOL
Ligand B3P 1 x B3P
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: P21
Unit cell:
a: 46.051Å b: 70.175Å c: 101.275Å
α: 90° β: 102.71° γ: 90°
R-values:
R R work R free
0.171 0.17 0.193
Expression system: Escherichia coli BL21

Quick links

Citations

6 review citations

Dioxygen Activation by Nonheme Diiron Enzymes: Diverse Dioxygen Adducts, High-Valent Intermediates, and Related Model Complexes.
Jasniewski et al. (2018)
5 more

6 mentions without citation

Hypusine, a polyamine-derived amino acid critical for eukaryotic translation.
Park et al. (2018)
5 more